dkNET Introductory Webinar 03/22/2019
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The dkNET team is announcing exciting new changes to the dkNET Portal. The newly designed web portal now includes many new tools and reporting systems to enable researchers to easily navigate large amounts of data and information about research resources-reagents, tools, organisms, grants and other services. The new portal makes it easier to find and use information about the tools you use in your research. An exciting new feature is the Hypothesis Center, which analyzes large amounts of ‘omics data to provide new insights into the pathways involved in DK diseases. In this webinar, we gave you an overview of services and tools provided at dkNET portal, and show you how to create a detailed research resource report, how to navigate NIH mandates and policies, FAIR data services, Hypothesis Center and more!
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dkNET Introductory Webinar 03/22/2019
- 2. dknet.orgAn+NIDDK+Resource Outline • Introduction*to*dkNET • Research*Resource*Identifiers*(RRIDs)*and*Resource*Reports • Reproducibility*Reports* • FAIR*Data*Services • Hypothesis*Center
- 3. dknet.orgAn+NIDDK+Resource What+is+dkNET? • dkNET'was'launched'to'serve'the'needs'of'basic'and'clinical'investigators'in' diabetes,)digestive,)endocrine,)metabolic,)kidney,)and)urologic)diseases. • dkNET'provides'seamless'access'to'a'collection'of'diverse'research' resources,'including'data,)information,)materials,)tools,)funding) opportunities,)literature,)services,)events,)news,)and'projects that'advance' the'mission'of'the'NIDDK. • dkNET'provides'tools'and'services'in'support'of'rigor)and)reproducibility,' built'around'the'Research'Resource'Identifier'(RRID)'and'the'FAIR'data' principles
- 4. dknet.orgAn+NIDDK+Resource dkNET+3.0 What’s'new? • Resource'Reports • Reproducibility' Reports • FAIR'data'services • Hypothesis'center • Frequent(updates( and(improvements Currently*in*Public*Beta****Official*Launch:**Early*April*2019
- 8. dknet.orgAn+NIDDK+Resource RRIDs%are: ● Unique%identifiers%for% research%resources ● Search%friendly% ● Provided%by%independent% community%registries%who% track%a%single%type%of% resource RRID:AB_1855196 Fothergill%LJ%et%al.%Cell%and%Tissue%Research.%375%(2)%359N69,%2019.
- 10. Why$were$RRIDs$created? Tracking Who$used$these$mice? Rigor+and+Transparency New$Guidelines$Authenticate:$ Antibodies,$Cell$lines,$Organisms RRIDs$answer$both$needs “...Blueprint,IC,were,briefed,on,the, neuromouse,project,..,publication, generated,using,this,resource; (It$ was$4$) believe); to,the,extent,NIF, could,offer,a,strategy,for, monitoring/tracking,this,resource, that,would,be,extremely,valuable…” Nov,2011 Resource$Identification$Initiative dkNET,'NIF,'FORCE11,' OHSU
- 12. dknet.orgAn+NIDDK+Resource dkNET+Resource+Reports • Aggregates( information(about( research(resources( using(the(RRID • Who(is(using(them? • Do(they(have(issues? • How(do(they( compare? • Is(anyone(near(me( using(them?
- 16. dknet.orgAn+NIDDK+Resource Resource+Summary+Report Resource(Information dkNET&updates&its data&from&community& resource®istries ● Antibody&Registry ● Cellosaurus ● SciCrunch&Registry& ● Organism& repositories Usage&Report
- 23. How$to$authenticate$a$cell$line;$What$to$do? ICLAC.org$– the$International$Cell$Line$ Authentication$Committee$gives$some$useful$ guidelines$and$also$provides$a$list$of$questionable$ cell$lines.$ ICLAC$suggests: • Verification$using$sequencing$of$the$cell$line$as$it$comes$ into$the$lab • Spot$checking$the$cell$line$on$some$schedule • Verifying$cell$line$at$the$end$of$the$experiments • Check$with$known$contaminated$cell$lines
- 27. dknet.orgAn+NIDDK+Resource NIH+Guidelines+on+Rigor+and+Reproducibility • Rigor:'“...the'strict'application' of'the'scientific'method'to' ensure'robust'and'unbiased' experimental'design,' methodology,'analysis,' interpretation'and'reporting' of'results.” • dkNET'can'assist'researchers' in'preparing'authentication' plans'for'cell+lines and' antibodies. https://grants.nih.gov/reproducibility/index.htm
- 29. dknet.orgAn+NIDDK+Resource Custom+Reproducibility+Reports What%are%included%in%the%custom% reproducibility%reports? 1. Resource%information% 2. RRIDs 3. Any%noted%issues%or%problems%with% the%resources 4. Authentication%plans%based%on% submitted%resources dkNET%has%also%created%an%automated%tool%to%enable%researchers%to% add%individual%resources%and%gather%more%information%including% warning%information%when%there%is%a%problem.
- 30. dknet.orgAn+NIDDK+Resource Custom+Reproducibility+Report+Dashboard Easy%steps%to%generate%a% report: 1. Open'an'dkNET' account 2. Create'a'report 3. Search'your' resource'and'add'it' to'the'report 4. Generate'the'report 5. Save'your'report Warning'sign' when'adding'a' problematic' resource 4 5 3
- 35. dknet.orgAn+NIDDK+Resource FAIR+data+principles High level principles to make data: • Findable • Accessible • Interoperable • Re-usable Mark%D.%Wilkinson%et%al.%The%FAIR%Guiding%Principles%for%scientific%data%management%and%stewardship,% Scientific(Data (2016).%DOI:%10.1038/sdata.2016.18 …for humans and machines
- 36. dknet.orgAn+NIDDK+Resource FAIR+principles+are... • “…characteristics that contemporary data resources, tools, vocabularies and infrastructures should exhibit to assist discovery and reuse by third- parties”-Wilkinson et al.,2016 • Recognized by major initiatives: EC-Elixir, H2020, US National Institutes of Health and G20 • It is recognised that FAIR data…play an essential role in the objectives of Open Science to improve and accelerate scientific research, to increase the engagement of society, and to contribute significantly to economic growth. Accordingly, ‘the Open Science agenda contains the ambition to make FAIR data sharing the default for scientific research by 2020.’ -Turning FAIR data into reality • “…we support appropriate efforts to promote open science and facilitate appropriate access to publicly funded research results on findable, accessible, interoperable and reusable (FAIR) principles”-G20 Hangzhou Summit
- 37. dknet.orgAn+NIDDK+Resource FAIR+Data+Resources ● Research)data)management)information ● Suggested)data)repositories ● Tools)for)creating)a)FAIR)Data)Plan)(Coming)soon!)
- 40. An#NIDDK#Resource dknet.org dkNET&Summer&of&Data&Student&Internship Program'description • Students)will)use)the)dkNET)portal)(dkNET.org))to)support)their)own) research)or)that)of)their)PI’s)lab,)while)learning)the)basics)of)good) data)management)for)FAIR)(Findable,)Accessible,)Interoperable,) Reusable))data.) • Research)projects)should)be)in)the)areas)of)focus)for)NIDDK)disease) fields.)Preference)will)be)given)to)those)projects)that)would)most) benefit)from)the)types)of)services)offered)by)dkNET,)e.g.,)projects) that)involve)antibodies,)genetically)modified)organisms,)and)‘omics’) data.) General'Expectation • Investigators)who)receive)dkNET)support)are)required)to)have)their) funded)student)participate)in)(5))weekly)online)webinars/discussions) with)the)dkNET)team,)present)their)work)to)the)dkNET)team)and) provide)a)final)standard)report)(ca.)2)pages)in)length))at)the)end)of) the)project.